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This class should serve as a wrapper around the Solution Class that will take most of the solution generation functionalities from the algorithm to this higher level class. Not all random perturbation…
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Thank you for releasing the code associated with your paper. I greatly appreciate your contribution to the field and the effort put into sharing your work with the community. I am currently studying y…
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I have two examples in real use cases that can trigger perturbation confusion error in ForwardDiff.jl.
The first example (Lagrangian):
```julia
using ForwardDiff
m,g = 1, 9.8
t = 1
q = [1,2]
…
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Given a Rmax perturbation the GAHM isotachs are currently perturbed by the same absolute amount [n mi]
Let's revisit to see if we can adjust with more physical/theoretical basis , by e.g., preserving…
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Hello, I'm really interested in your work! However, I have some questions about the adversarial attack with text perturbation. In Table 5, the adversarial attack with only perturbation on the text cou…
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If one runs the Jacobian calculation with sub-sampling enabled such as follows: `dyn.vf.jacobian(adata, regulators=top_pca_genes, effectors=top_pca_genes, sampling="velocity", sample_ncells=2000)`, su…
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**Describe the bug**
I am having a problem importing a module 'scenicplus.dimensionality_reduction'. I am running the basic Perturbation simulation tutorial with the most recent version of scenicplus…
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## PBMC with IFN-beta results
- DEGs: 68
- r2mean: ~0.8
- r2mean_top100: ~0.8
## sci-plex 3 ellag…
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Update variance papar dataset name + description:
https://www.biorxiv.org/content/10.1101/2020.12.08.415562v2.full
and add these:
* https://www.allencell.org/drug-perturbation-pilot.html
[Drug Pertur…
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Let me start by congratulating you on this great simulation tool!
So as the title suggests, is there a way to simulate a knockdown or knockout in BoolODE? In a related fashion, is there a way to set …